To gain a comprehensive, unbiased overview of viral and cellular protein dynamics during HIV-infection of its natural target cell, we used the HIV-AFMACS virus to spinoculate activated, primary human CD4+ T cells, sorted infected (SBP-ΔLNGFR positive) and uninfected (SBP-ΔLNGFR negative) cells by AFMACS 24 hr and 48 hr post-infection, and analysed whole cell lysates using tandem mass tag (TMT)-based quantitative proteomics (Figure 2A–B and Figure 2—figure supplement 1A) (Greenwood et al., 2016; Weekes et al., 2014). Here, CD4 is linked to infection.